History of bible_nouns

The changes to the source code of this entry in the repository, newest first, each with the differences it made to the entry's files. They are also listed on GitLab.

2026-11-03 [entries] Add the date when each entry was added, and remove icon_hash by Tiago de Paula Peixoto beff7c9

The dates are those of the commits that first added the entries' files
(2020-08-11 for the entries of the initial commit); renamed entries keep
the date of their first name.

Changed: none

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index db1ed53..11a8560 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -30,7 +30,7 @@ The network has the following properties:
 tags = ['Informational', 'Language', 'Weighted', 'Metadata']
 url = 'https://web.archive.org/web/20210115130726/http://moreno.ss.uci.edu/data.html#bible'
 citation = [('C. Römhild & C. Harrison, "Bible Cross-References."', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]
-icon_hash = '580654328cf714f319c3be87'
+date_added = '2020-08-11'
 upstream_license = None
 upstream_prefix = 'https://web.archive.org/web/20210115130726id_/http://moreno.ss.uci.edu'
 files = [('names.dat', None, None)]

2026-11-03 [entries] Prefix the properties in the descriptions with (Node), (Edge) or (Graph) by Tiago de Paula Peixoto bc3dbbd

The lists of properties at the end of the descriptions marked edge
properties with "Edge" but left node properties unmarked, or grouped
them in "Nodes: `a`, ...; `b`, ..." items, so the kind of a property
was often unclear. Every item now starts with (Node), (Edge) or (Graph),
followed by the property names, a colon and the explanation, one item
per property or group of properties; qualifications (kinds of nodes,
networks) follow the names in parentheses. Properties that were only
named got a short explanation, and a few items that named the wrong
kind of property were corrected.

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index dbe0293..db1ed53 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -25,8 +25,8 @@ An undirected edge (i, j) indicates that the nouns i and j appear together in at
 
 The network has the following properties:
 
-- Nodes: `name`, the proper noun (in lower case).
-- Edges: `weight`, the number of verses in which the two nouns appear together."""
+- (Node) `name`: the proper noun (in lower case).
+- (Edge) `weight`: the number of verses in which the two nouns appear together."""
 tags = ['Informational', 'Language', 'Weighted', 'Metadata']
 url = 'https://web.archive.org/web/20210115130726/http://moreno.ss.uci.edu/data.html#bible'
 citation = [('C. Römhild & C. Harrison, "Bible Cross-References."', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]

2026-11-02 [entries] Remove unneeded code from the entries by Tiago de Paula Peixoto 2c69f19

Unneeded "global files" statements, unused imports and variables,
f-strings without placeholders, duplicate keys in foodweb_little_rock
(keeping the order and the values used), and the second definition of
get_lines() in twitter_higgs. Nothing changes in the networks or
descriptions.

Changed: none

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index c9c3b4a..dbe0293 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -45,7 +45,6 @@ def fetch_upstream(force=False):
 @coerce_props(vforce={"name": "string"})
 @annotate()
 def parse(alts=None):
-    global files
     name = __name__.split(".")[-1]
     for fnames, alt, fmt in files:
         if alts is not None and alt not in alts:

2026-10-25 [entries] Move more KONECT-derived entries to their original sources by Tiago de Paula Peixoto bf9dc0e

The entries now download the data from where KONECT obtained them (live,
or via the Wayback Machine), using the same release as KONECT where it is
still available, and gain the metadata KONECT dropped; descriptions and
citations are rewritten from the original sources:

- Linton Freeman's UCINET data page: bible_nouns, bison, cattle, hens,
  highschool, kangaroo, macaques, moreno_sheep, physician_trust (the three
  relations and the physicians' attributes), rhesus_monkey,
  train_terrorists, windsurfers (now the networks `interaction` and
  `closeness`), college_freshmen, crime, interactome_yeast (from the
  primary source), moreno_taro (undirected), residence_hall, zebras
- other pages, archived: contiguous_usa, advogato, google, github,
  digg_reply, twitter, bookcrossing, dbtropes_feature (without KONECT's
  spurious "ItemName" tropes)
- movielens_100k (in fact the MovieLens 10M tag assignments)
- dblp release 2017-05-02: dblp_author_paper, dblp_cite, dblp_coauthor
- DBpedia 3.9: dbpedia_country, dbpedia_genre, dbpedia_location,
  dbpedia_occupation, dbpedia_producer, dbpedia_recordlabel,
  dbpedia_starring, dbpedia_team, dbpedia_writer, dbpedia_all, dbpedia_link
- Discogs releases dump of October 2015: discogs_affiliation,
  discogs_genre and discogs_label (now with genre and style networks)

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index f0f7a74..c9c3b4a 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -19,21 +19,30 @@
 from .. import *
 
 title = "Bible noun phrases"
-description = """A network of noun phrases (places and names) in the King James Version of the Bible. Each node is a noun phrase, and an edge exists if the noun phrases co-occur in a Bible verse. Edge weight denotes how often the two words co-occur.[^icon]
-[^icon]: Description obtained from the [ICON](https://icon.colorado.edu) project."""
-tags = ['Informational', 'Language', 'Weighted']
-url = 'http://konect.cc/networks/moreno_names'
+description = """Co-occurrences of proper nouns (people and places) in the verses of the King James Version of the Bible. C. Römhild recorded 1773 proper nouns, and tallied 63,779 occasions in which pairs of them appeared in the same verse; together with C. Harrison, he used the data to produce visualizations of the Bible. The data were distributed by L. C. Freeman on his network data page at the University of California, Irvine (no longer online), from which this version was obtained via the Internet Archive.
+
+An undirected edge (i, j) indicates that the nouns i and j appear together in at least one verse.
+
+The network has the following properties:
+
+- Nodes: `name`, the proper noun (in lower case).
+- Edges: `weight`, the number of verses in which the two nouns appear together."""
+tags = ['Informational', 'Language', 'Weighted', 'Metadata']
+url = 'https://web.archive.org/web/20210115130726/http://moreno.ss.uci.edu/data.html#bible'
 citation = [('C. Römhild & C. Harrison, "Bible Cross-References."', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]
 icon_hash = '580654328cf714f319c3be87'
-upstream_prefix = 'http://konect.cc/files'
-files = [('download.tsv.moreno_names.tar.bz2', None, 'konect')]
+upstream_license = None
+upstream_prefix = 'https://web.archive.org/web/20210115130726id_/http://moreno.ss.uci.edu'
+files = [('names.dat', None, None)]
 
 def fetch_upstream(force=False):
-    return fetch_upstream_files(__name__.split(".")[-1], upstream_prefix, files,
-                                force)
+    # The Wayback Machine refuses connections or fails when rate-limited, so
+    # retry with increasing pauses (files already fetched are skipped)
+    return retry_download(fetch_upstream_files, __name__.split(".")[-1],
+                          upstream_prefix, files, force)
 
 @cache_network()
-@coerce_props()
+@coerce_props(vforce={"name": "string"})
 @annotate()
 def parse(alts=None):
     global files
@@ -44,6 +53,20 @@ def parse(alts=None):
         if isinstance(fnames, str):
             fnames = [fnames]
         with ExitStack() as stack:
-            fs = [stack.enter_context(open_upstream_file(name, fn, "rb")) for fn in fnames]
-            g = parse_graph(fs, fmt, directed=False)
+            fs = [stack.enter_context(open_upstream_file(name, fn, "rb"))
+                  for fn in fnames]
+            # UCINET DL file in EDGELIST1 format, with the labels embedded in
+            # the edge list ("noun,noun,count")
+            lines = fs[0].read().decode("latin-1").replace("\r", "\n").split("\n")
+        N = int(re.search(r"N=(\d+)", " ".join(lines[:4])).group(1))
+        edges = []
+        for l in lines[lines.index("DATA:") + 1:]:
+            if l.strip():
+                u, v, w = l.split(",")
+                edges.append((u.strip(), v.strip(), int(w)))
+        g = Graph(directed=False)
+        g.ep.weight = g.new_ep("int")
+        g.vp.name = g.add_edge_list(edges, hashed=True, hash_type="string",
+                                    eprops=[g.ep.weight])
+        assert g.num_vertices() == N
         yield alt, g

2026-10-24 Update copyright information by Tiago de Paula Peixoto 73a4f0d

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index 8358ab0..f0f7a74 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -1,7 +1,7 @@
 #! /usr/bin/env python
 # -*- coding: utf-8 -*-
 #
-# Copyright (C) 2020-2024 Tiago de Paula Peixoto <tiago@skewed.de>
+# Copyright (C) 2020-2026 Tiago de Paula Peixoto <tiago@skewed.de>
 #
 # This program is free software: you can redistribute it and/or modify it under
 # the terms of the GNU Affero General Public License as published by the Free

2024-05-27 Update copyright information by Tiago de Paula Peixoto 3d288ea

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index cc98848..8358ab0 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -1,7 +1,7 @@
 #! /usr/bin/env python
 # -*- coding: utf-8 -*-
 #
-# Copyright (C) 2020-2023 Tiago de Paula Peixoto <tiago@skewed.de>
+# Copyright (C) 2020-2024 Tiago de Paula Peixoto <tiago@skewed.de>
 #
 # This program is free software: you can redistribute it and/or modify it under
 # the terms of the GNU Affero General Public License as published by the Free

2023-02-19 Update copyright information by Tiago de Paula Peixoto 8d005ae

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index 24a3104..cc98848 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -1,7 +1,7 @@
 #! /usr/bin/env python
 # -*- coding: utf-8 -*-
 #
-# Copyright (C) 2021 Tiago de Paula Peixoto <tiago@skewed.de>
+# Copyright (C) 2020-2023 Tiago de Paula Peixoto <tiago@skewed.de>
 #
 # This program is free software: you can redistribute it and/or modify it under
 # the terms of the GNU Affero General Public License as published by the Free

2021-06-22 Update copyright info by Tiago de Paula Peixoto db2efcc

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index 5457f10..24a3104 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -1,7 +1,7 @@
 #! /usr/bin/env python
 # -*- coding: utf-8 -*-
 #
-# Copyright (C) 2020 Tiago de Paula Peixoto <tiago@skewed.de>
+# Copyright (C) 2021 Tiago de Paula Peixoto <tiago@skewed.de>
 #
 # This program is free software: you can redistribute it and/or modify it under
 # the terms of the GNU Affero General Public License as published by the Free

2021-02-01 Un-orphan KONECT datasets by Tiago de Paula Peixoto 894eba5

KONECT has been brought back from the dead for the time being.

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index 92f6403..5457f10 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -26,7 +26,6 @@ url = 'http://konect.cc/networks/moreno_names'
 citation = [('C. Römhild & C. Harrison, "Bible Cross-References."', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]
 icon_hash = '580654328cf714f319c3be87'
 upstream_prefix = 'http://konect.cc/files'
-orphan = True
 files = [('download.tsv.moreno_names.tar.bz2', None, 'konect')]
 
 def fetch_upstream(force=False):

2020-11-28 Update citations to use DOIs by Tiago de Paula Peixoto e878874

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index 07b0dbd..92f6403 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -23,7 +23,7 @@ description = """A network of noun phrases (places and names) in the King James
 [^icon]: Description obtained from the [ICON](https://icon.colorado.edu) project."""
 tags = ['Informational', 'Language', 'Weighted']
 url = 'http://konect.cc/networks/moreno_names'
-citation = [('C. Römhild & C. Harrison, "Bible Cross-References." chrisharrison.net/index.php/Visualizations/BibleViz (Accessed October 2016)', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]
+citation = [('C. Römhild & C. Harrison, "Bible Cross-References."', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]
 icon_hash = '580654328cf714f319c3be87'
 upstream_prefix = 'http://konect.cc/files'
 orphan = True

2020-11-02 Add support for 'orphan' datasets and tag konect entries by Tiago de Paula Peixoto e330b80

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index 045ecf7..07b0dbd 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -26,6 +26,7 @@ url = 'http://konect.cc/networks/moreno_names'
 citation = [('C. Römhild & C. Harrison, "Bible Cross-References." chrisharrison.net/index.php/Visualizations/BibleViz (Accessed October 2016)', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]
 icon_hash = '580654328cf714f319c3be87'
 upstream_prefix = 'http://konect.cc/files'
+orphan = True
 files = [('download.tsv.moreno_names.tar.bz2', None, 'konect')]
 
 def fetch_upstream(force=False):

2020-09-15 Change license from GPLv3 to AGPLv3 by Tiago de Paula Peixoto d754be5

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index 71145df..045ecf7 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -3,18 +3,18 @@
 #
 # Copyright (C) 2020 Tiago de Paula Peixoto <tiago@skewed.de>
 #
-# This program is free software: you can redistribute it and/or modify
-# it under the terms of the GNU General Public License as published by
-# the Free Software Foundation, either version 3 of the License, or
-# (at your option) any later version.
+# This program is free software: you can redistribute it and/or modify it under
+# the terms of the GNU Affero General Public License as published by the Free
+# Software Foundation, either version 3 of the License, or (at your option) any
+# later version.
 #
-# This program is distributed in the hope that it will be useful,
-# but WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-# GNU General Public License for more details.
+# This program is distributed in the hope that it will be useful, but WITHOUT
+# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
+# FOR A PARTICULAR PURPOSE.  See the GNU Affero General Public License for more
+# details.
 #
-# You should have received a copy of the GNU General Public License
-# along with this program.  If not, see <http://www.gnu.org/licenses/>.
+# You should have received a copy of the GNU Affero General Public License along
+# with this program.  If not, see <http://www.gnu.org/licenses/>.
 
 from .. import *

2020-09-13 Add explicit attribution to descriptions obtained from ICON by Tiago de Paula Peixoto 1645314

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
index e5b2877..71145df 100644
--- a/entries/bible_nouns/__init__.py
+++ b/entries/bible_nouns/__init__.py
@@ -19,7 +19,8 @@
 from .. import *
 
 title = "Bible noun phrases"
-description = "A network of noun phrases (places and names) in the King James Version of the Bible. Each node is a noun phrase, and an edge exists if the noun phrases co-occur in a Bible verse. Edge weight denotes how often the two words co-occur."
+description = """A network of noun phrases (places and names) in the King James Version of the Bible. Each node is a noun phrase, and an edge exists if the noun phrases co-occur in a Bible verse. Edge weight denotes how often the two words co-occur.[^icon]
+[^icon]: Description obtained from the [ICON](https://icon.colorado.edu) project."""
 tags = ['Informational', 'Language', 'Weighted']
 url = 'http://konect.cc/networks/moreno_names'
 citation = [('C. Römhild & C. Harrison, "Bible Cross-References." chrisharrison.net/index.php/Visualizations/BibleViz (Accessed October 2016)', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]

2020-08-11 Initial commit by Tiago de Paula Peixoto cc85872

diff --git a/entries/bible_nouns/__init__.py b/entries/bible_nouns/__init__.py
new file mode 100644
index 0000000..e5b2877
--- /dev/null
+++ b/entries/bible_nouns/__init__.py
@@ -0,0 +1,48 @@
+#! /usr/bin/env python
+# -*- coding: utf-8 -*-
+#
+# Copyright (C) 2020 Tiago de Paula Peixoto <tiago@skewed.de>
+#
+# This program is free software: you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation, either version 3 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License
+# along with this program.  If not, see <http://www.gnu.org/licenses/>.
+
+from .. import *
+
+title = "Bible noun phrases"
+description = "A network of noun phrases (places and names) in the King James Version of the Bible. Each node is a noun phrase, and an edge exists if the noun phrases co-occur in a Bible verse. Edge weight denotes how often the two words co-occur."
+tags = ['Informational', 'Language', 'Weighted']
+url = 'http://konect.cc/networks/moreno_names'
+citation = [('C. Römhild & C. Harrison, "Bible Cross-References." chrisharrison.net/index.php/Visualizations/BibleViz (Accessed October 2016)', 'http://www.chrisharrison.net/index.php/Visualizations/BibleViz')]
+icon_hash = '580654328cf714f319c3be87'
+upstream_prefix = 'http://konect.cc/files'
+files = [('download.tsv.moreno_names.tar.bz2', None, 'konect')]
+
+def fetch_upstream(force=False):
+    return fetch_upstream_files(__name__.split(".")[-1], upstream_prefix, files,
+                                force)
+
+@cache_network()
+@coerce_props()
+@annotate()
+def parse(alts=None):
+    global files
+    name = __name__.split(".")[-1]
+    for fnames, alt, fmt in files:
+        if alts is not None and alt not in alts:
+            continue
+        if isinstance(fnames, str):
+            fnames = [fnames]
+        with ExitStack() as stack:
+            fs = [stack.enter_context(open_upstream_file(name, fn, "rb")) for fn in fnames]
+            g = parse_graph(fs, fmt, directed=False)
+        yield alt, g